1 MA plots

1.1 Fold-change cutoff 2

Cold v Ctrl MA plot

Hot v Ctrl MA plot

1.2 No fold-change cutoff

Cold v Ctrl MA plot

Hot v Ctrl MA plot

1.3 No fold-change cutoff (fdr < 0.01)

Cold v Ctrl MA plot

Hot v Ctrl MA plot

2 Top 50 differentially expressed genes

2.1 Heat shock

gene hot_fc log2FoldChange.hot padj.hot
CG3339 down -5.155 1.097e-27
l(2)08717 down -2.3 4.051e-25
pip down -3.434 5.188e-24
stan down -2.592 2.063e-23
Dhc36C down -2.724 1.51e-22
ft down -3.361 4.602e-22
CG17075 down -2.455 5.379e-22
CG1801 down -3.692 2.458e-21
CG9492 down -4.122 2.881e-20
Dhc93AB down -3.104 1.029e-19
Dscam1 down -1.795 1.792e-19
CG42534 down -4.148 4.16e-19
CG6125 down -2.153 7.197e-19
CG1688 down -3.061 8.789e-19
btv down -4.624 1.002e-18
Sb down -4.59 1.126e-18
CG43980 down -4.82 1.34e-18
Muc14A down -2.612 1.372e-18
hiw down -1.521 1.414e-18
CG3348 down -3.219 1.822e-18
Nos down -3.834 2.877e-18
CG30263 down -3.978 4.212e-18
jv down -2.334 4.212e-18
conv down -4.136 4.94e-18
NT1 down -6.652 4.94e-18
Dop1R1 down -2.643 6.474e-18
Shawl down -3.459 8.688e-18
CG8745 down -2.145 1.314e-17
CG14304 down -4.486 1.542e-17
CG31465 down -6.373 2.078e-17
Ugt86Di down -5.074 4.038e-17
CR44327 down -2.536 4.654e-17
salr down -3.028 4.671e-17
nompC down -3.89 6.068e-17
SIFaR down -4.022 6.357e-17
Nlg4 down -2.488 8.891e-17
CG15894 down -2.427 1.946e-16
Cda5 down -1.12 2.097e-16
CG4744 down -6.327 2.705e-16
eag down -1.729 2.931e-16
CG30272 down -3.39 3.009e-16
Ac78C down -2.352 3.672e-16
CG45105 down -3.336 4.007e-16
Rab26 down -2.214 4.049e-16
CG12950 down -2.918 4.628e-16
CG32791 down -1.702 5.419e-16
TkR99D down -3.825 8.6e-16
Ddr down -3.329 9.219e-16
GABA-B-R1 down -2.256 1.09e-15
Sytbeta down -3.292 1.449e-15
Hsp68 up 6.888 0
DnaJ-1 up 3.727 2.219e-143
Hsp70Bb up 7.003 2.219e-143
stv up 4.471 2.373e-104
Hsp26 up 4.279 5.676e-72
Hsp67Bc up 4.785 2.957e-71
Hsp27 up 3.532 4.06e-62
Hsp83 up 2.106 6.281e-58
Hsp23 up 6.872 8.789e-53
Nop17l up 1.614 7.563e-52
CG6770 up 1.78 5.402e-48
Hop up 1.305 1.268e-43
CG42240 up 1.131 1.65e-41
Hsc70Cb up 1.271 5.313e-38
Jafrac1 up 0.8308 7.251e-38
CG16721 up 1.484 1.699e-36
CG1416 up 1.24 1.833e-34
CG5290 up 1.882 8.359e-34
Droj2 up 1.165 9.102e-33
Hsc70-3 up 1.522 2.984e-32
Lsd-2 up 1.004 2.845e-30
alphagamma-element:CR32865 up 6.317 1.507e-29
sra up 1.258 9.836e-29
CG10600 up 1.189 1.267e-28
Mlf up 1.019 1.689e-28
Capr up 0.9256 6.875e-28
mim up 1.18 1.125e-26
Hsp70Bc up 5.778 5.299e-26
CG10077 up 1.398 5.714e-26
Pgi up 0.9688 3e-25
ref(2)P up 1.398 7.851e-24
CG7033 up 1.009 4.144e-23
e(y)3 up 0.9014 8.199e-23
Trxr-1 up 1.139 1.335e-22
Pa1 up 1.987 1.445e-22
CG1943 up 1.14 1.445e-22
PEK up 1.254 5.637e-22
GstD1 up 0.8593 7.088e-22
phol up 1.028 8.707e-22
CG3680 up 0.8435 4.633e-21
TfIIEalpha up 1.076 1.121e-20
da up 0.8578 2.725e-20
cact up 0.8173 3.294e-20
Ran up 0.7748 6.905e-20
CG1677 up 0.8251 9.427e-20
betaTub56D up 1.038 1.749e-19
Cctgamma up 0.8277 6.345e-19
BRWD3 up 0.8852 7.197e-19
l(1)G0469 up 1.272 7.197e-19
Pdk up 1.35 1.224e-18

2.2 Cold shock

gene cold_fc log2FoldChange.cold padj.cold
stan down -2.535 2.296e-20
Dhc93AB down -3.204 2.253e-19
CG3339 down -4.294 5.99e-19
CG1801 down -3.666 5.99e-19
CG3280 down -3.068 5.99e-19
CG42534 down -4.469 7.335e-19
CG32791 down -1.855 1.687e-17
ft down -2.987 8.646e-17
pip down -2.89 1.435e-16
Dscam1 down -1.683 2.136e-16
CG43163 down -3.52 4.912e-16
CG9492 down -3.725 5.06e-16
rk down -3.238 8.245e-16
Dhc36C down -2.296 1.463e-15
CG8219 down -5.491 1.463e-15
SIFaR down -4.039 2.331e-15
Ac78C down -2.361 3.608e-15
Ddr down -3.388 6.724e-15
d down -3.775 1.027e-14
CR45604 down -3.018 1.027e-14
mtt down -3.664 1.135e-14
Dhc62B down -3.892 1.49e-14
iav down -4.075 1.696e-14
CR45272 down -4.647 2.839e-14
prom down -2.737 2.839e-14
CG18519 down -3.233 2.839e-14
CG43110 down -3.216 4.113e-14
Nep5 down -3.804 4.113e-14
conv down -3.69 6.626e-14
rdgC down -1.94 6.946e-14
Shawl down -3.097 7.672e-14
CG44153 down -3.691 8.047e-14
Hsp68 down -1.071 8.344e-14
GluRIB down -2.415 9.254e-14
CG45002 down -1.938 9.254e-14
Sb down -3.89 1.557e-13
Nlg4 down -2.28 1.557e-13
CG4744 down -5.989 1.789e-13
trh down -2.138 2.011e-13
btv down -3.901 2.345e-13
rdo down -3.167 2.827e-13
Dop1R1 down -2.284 4.304e-13
unc-13-4A down -2.109 4.464e-13
TrpA1 down -4.111 4.79e-13
CG42255 down -1.631 5.093e-13
CG31814 down -3.185 5.781e-13
rad down -1.922 6.059e-13
Muc68Ca down -3.064 6.059e-13
CG43795 down -2.427 6.591e-13
eag down -1.562 7.105e-13
Jafrac1 up 0.6228 1.102e-19
Lsd-2 up 0.8045 1.486e-18
endos up 0.7605 1.544e-17
D1 up 0.684 1.687e-17
Muc4B up 2.542 1.687e-17
Capr up 0.7236 2.497e-16
CG14478 up 0.8465 3.717e-15
CG1677 up 0.73 7.404e-15
Ran up 0.6814 7.51e-15
CG15771 up 0.6845 1.537e-14
bif up 0.7919 2.869e-14
GstD1 up 0.7024 3.842e-14
e(y)3 up 0.7182 4.174e-14
mts up 0.638 6.428e-14
phol up 0.8291 9.254e-14
east up 0.7952 1.511e-13
Act5C up 0.6184 2.345e-13
CG8223 up 0.9441 2.752e-13
cact up 0.6657 4.446e-13
Rip11 up 0.7142 5.651e-13
CG1440 up 0.6414 5.951e-13
ssx up 0.6681 7.105e-13
swa up 0.8273 1.017e-12
tral up 0.8757 1.203e-12
CG1943 up 0.8542 1.883e-12
Pen up 0.898 2.887e-12
cib up 0.8765 3.891e-12
nocte up 0.7272 5.576e-12
CG6597 up 0.6554 5.593e-12
CG8963 up 0.6505 5.707e-12
mim up 0.7948 6.11e-12
Hmt4-20 up 0.7751 6.589e-12
CG12262 up 0.8364 1.29e-11
26-29-p up 0.8999 1.457e-11
rngo up 0.6756 1.476e-11
Jupiter up 0.6516 1.526e-11
CG4511 up 0.7374 1.68e-11
da up 0.6498 1.814e-11
pr-set7 up 0.8255 2.345e-11
Cap up 0.775 2.683e-11
CG10492 up 0.844 2.975e-11
Gapdh2 up 0.7177 3.343e-11
Rpt1 up 0.5432 3.942e-11
Df31 up 0.7823 4.048e-11
CG8108 up 0.6396 4.688e-11
betaTub56D up 0.7807 5.6e-11
Upf1 up 0.6236 5.655e-11
CG9705 up 0.7375 8.723e-11
Abi up 0.6488 8.733e-11
Amun up 0.7009 9.284e-11

3 Shared and unique - LFC scatter

3.1 GWAS density plots

3.2 No labels

3.3 GWAS hits labeled

3.4 With unique labeled

3.5 With shared labeled

3.6 With shared labeled (padj.hot)

4 GWAS

4.1 CTmax

4.1.1 All hits (pval cutoff 10^-5)

ID gene grps AvgEff AvgMixedPval
2R_10330800_INS Oaz INTRON 0.2164 8.00e-07
2R_6398772_SNP lola INTRON 0.3719 9.00e-07
2R_6398743_SNP lola INTRON 0.3710 9.00e-07
2R_10330805_SNP Oaz INTRON 0.2332 1.00e-06
3R_22515826_SNP 0.1838 2.30e-06
2L_12384183_SNP bru-2 INTRON 0.1670 2.40e-06
3R_25373467_SNP 0.3578 2.50e-06
2R_17564376_SNP CG30263 SYNONYMOUS_CODING 0.1794 2.60e-06
2R_10330722_SNP Oaz INTRON 0.2064 3.00e-06
X_3381582_SNP CG10803 INTRON 0.1864 3.20e-06
X_3381590_SNP CG10803 INTRON 0.1864 3.20e-06
2R_10330717_SNP Oaz INTRON 0.2102 3.50e-06
X_3381391_SNP CG10803 INTRON 0.1804 3.70e-06
X_3381587_SNP CG10803 INTRON 0.1849 4.10e-06
3L_9575326_SNP CG42673 INTRON 0.2063 6.00e-06
X_5876026_SNP Grip INTRON -0.1524 6.00e-06
3R_3427376_SNP CG34127 INTRON 0.1614 7.60e-06
2L_19428598_SNP CG16771 NON_SYNONYMOUS_CODING 0.1940 8.40e-06
2R_10330701_SNP Oaz INTRON 0.2015 9.70e-06
2L_19428336_SNP CG16771 SYNONYMOUS_CODING 0.2192 9.90e-06
3R_20025347_SNP twin INTRON 0.1599 1.00e-05
3L_14419091_SNP bbg INTRON -0.1660 1.03e-05
3L_1853643_SNP CG13936 INTRON -0.1620 1.42e-05
3R_18941021_SNP Rassf INTRON 0.1441 2.59e-05
2R_2894462_SNP Tsp42Ec INTRON 0.1546 2.92e-05
3L_1853640_SNP CG13936 INTRON -0.1510 3.62e-05
3R_7950242_SNP CG4702 INTRON 0.1614 3.67e-05
3R_23411999_SNP raps UTR_3_PRIME 0.3155 4.13e-05
X_15304333_SNP cngl INTRON 0.3127 4.89e-05

4.1.2 Group count

grps n
INTRON 23
SYNONYMOUS_CODING 2
NON_SYNONYMOUS_CODING 1
UTR_3_PRIME 1

4.1.3 Gene count (>2)

gene n
Oaz 5
CG10803 4
CG13936 2
CG16771 2
lola 2

4.2 CTmin

4.2.1 All hits (pval cutoff 10^-5)

ID gene grps AvgEff AvgMixedPval
2R_20313579_SNP prom INTRON 0.7260 0.00e+00
X_4385442_SNP CG32773 INTRON 1.0300 1.00e-07
3R_13900959_SNP 0.6348 2.00e-07
2R_20308502_SNP prom INTRON 0.6173 4.00e-07
3R_12992895_SNP Mur89F INTRON -0.6868 7.00e-07
2R_20313917_SNP prom INTRON 0.6276 9.00e-07
2R_20313922_DEL prom INTRON 0.6276 9.00e-07
2R_20313930_SNP prom INTRON 0.6276 9.00e-07
2R_20313933_SNP prom INTRON 0.6276 9.00e-07
2R_20313935_INS prom INTRON 0.6276 9.00e-07
2R_20313938_SNP prom INTRON 0.6276 9.00e-07
2R_20313940_MNP prom INTRON 0.6276 9.00e-07
2R_20308558_SNP prom INTRON 0.6119 1.00e-06
2R_20250118_SNP bs INTRON 0.5472 1.00e-06
2R_20301097_SNP CG3419 SYNONYMOUS_CODING 0.5562 1.10e-06
2R_20301239_SNP CG3419 NON_SYNONYMOUS_CODING 0.5434 1.10e-06
2R_20308533_SNP prom INTRON 0.5994 1.20e-06
2R_20313914_SNP prom INTRON 0.6215 1.30e-06
2L_2612712_SNP -0.7705 1.40e-06
2R_20313927_SNP prom INTRON 0.6177 1.50e-06
2R_20313911_SNP prom INTRON 0.6056 1.80e-06
2R_20307893_SNP prom NON_SYNONYMOUS_CODING 0.5823 1.80e-06
2R_20313916_SNP prom INTRON 0.6222 1.90e-06
2R_20308565_SNP prom INTRON 0.6001 1.90e-06
2R_20309964_SNP prom INTRON 0.6214 2.00e-06
2R_20309106_SNP prom INTRON 0.5709 2.20e-06
3R_11364111_SNP CG18519 SYNONYMOUS_CODING 0.6916 2.20e-06
2R_20313919_SNP prom INTRON 0.6250 2.40e-06
3R_14850882_SNP CG14285 NON_SYNONYMOUS_CODING 0.7111 3.10e-06
2R_20313912_SNP prom INTRON 0.6180 3.20e-06
2L_3465546_SNP msl-2 NON_SYNONYMOUS_CODING 0.9493 3.20e-06
2R_20301123_SNP CG3419 NON_SYNONYMOUS_CODING 0.5247 3.30e-06
3R_13552400_SNP Lgr1 INTRON -0.9664 3.60e-06
3R_11367299_SNP CG18519 NON_SYNONYMOUS_CODING 0.7277 4.00e-06
3R_11288771_SNP CG14869 INTRON 0.9176 4.20e-06
2R_20301091_SNP CG3419 SYNONYMOUS_CODING 0.5258 4.20e-06
2R_12301745_SNP Sema-2b INTRON -0.5963 4.20e-06
3R_12990694_SNP Mur89F INTRON 0.5249 4.30e-06
2R_20309307_SNP prom INTRON 0.5642 4.80e-06
3R_9949217_SNP twf SYNONYMOUS_CODING 0.7970 5.60e-06
3R_13002842_SNP Mur89F INTRON 0.5265 5.70e-06
2R_20309122_SNP prom INTRON 0.5473 5.80e-06
3R_12997215_SNP Mur89F INTRON 0.5159 6.00e-06
2L_3396579_SNP 0.9004 6.60e-06
2L_3396577_SNP 0.8995 6.70e-06
3R_13552010_SNP Lgr1 INTRON -1.0970 6.70e-06
3L_4694662_SNP CG15876 SYNONYMOUS_CODING -0.5194 7.50e-06
X_5639729_SNP IntS6 INTRON 0.8784 7.50e-06
2L_2612282_INS CG15395 DOWNSTREAM -0.7986 7.60e-06
2R_7024700_SNP BBS4 SYNONYMOUS_CODING 0.8879 7.80e-06
2R_20313809_SNP prom INTRON 0.5613 9.00e-06
3L_5853164_SNP 0.5565 9.60e-06
2L_3885863_SNP capu INTRON 0.4909 9.70e-06
2R_20263633_SNP bs UTR_3_PRIME 0.5679 1.07e-05
3L_8696154_SNP 0.8089 1.07e-05
2R_20308557_SNP prom INTRON 0.5645 1.08e-05
2R_20313929_SNP prom INTRON 0.5872 1.11e-05
3R_11388164_SNP 0.5080 1.22e-05
2R_15691303_SNP -0.8674 1.23e-05
2R_20314643_SNP prom INTRON 0.5688 1.26e-05
3L_14188075_SNP nuf INTRON 0.5235 1.30e-05
2R_20250001_SNP bs INTRON 0.5296 1.37e-05
2R_10963282_SNP 0.5813 1.40e-05
3R_5901971_SNP CG5361 UPSTREAM -0.9199 1.48e-05
2R_20308551_SNP prom INTRON 0.5059 1.51e-05
2R_20306042_SNP prom INTRON 0.4978 1.52e-05
2R_17037739_INS CG30389 INTRON 0.9023 1.55e-05
X_6270410_SNP 0.6623 1.55e-05
3R_12992188_SNP Mur89F INTRON 0.4925 1.61e-05
2R_20280640_SNP slik DOWNSTREAM 0.5158 1.81e-05
X_14991195_SNP rab3-GEF INTRON 0.4949 1.83e-05
3R_12997318_SNP Mur89F INTRON 0.4879 2.01e-05
2R_20263506_SNP bs NON_SYNONYMOUS_CODING 0.5286 2.02e-05
2R_20263738_SNP bs UTR_3_PRIME 0.5286 2.02e-05
2R_20263740_INS bs UTR_3_PRIME 0.5286 2.02e-05
2R_20263742_SNP bs UTR_3_PRIME 0.5286 2.02e-05
2R_3772050_SNP Dgk INTRON 0.5197 2.10e-05
2R_20313932_SNP prom INTRON 0.5951 2.19e-05
2R_20257701_SNP bs INTRON 0.5248 2.30e-05
2R_20252998_SNP bs INTRON 0.5041 2.36e-05
2L_16629322_SNP CG42389 INTRON -0.4818 2.42e-05
2R_20280846_SNP slik DOWNSTREAM 0.5190 2.43e-05
X_5908964_SNP 1.0450 2.58e-05
2R_20257613_SNP bs INTRON 0.5202 2.70e-05
3R_5905483_SNP -1.0390 2.70e-05
3R_4247244_SNP CG43462 INTRON -0.5526 2.83e-05
3R_9755188_SNP -0.5000 2.85e-05
2L_1964167_SNP erm INTRON -0.6578 2.87e-05
2R_20280809_SNP slik DOWNSTREAM 0.5103 2.96e-05
X_7604829_INS 1.0340 3.04e-05
2R_20260408_SNP bs INTRON 0.5402 3.32e-05
2R_12696827_SNP 0.5654 3.35e-05
2R_14565483_DEL CG15086 DOWNSTREAM -1.0320 3.45e-05
2R_1991490_SNP EcR INTRON 0.9278 3.60e-05
2R_1991491_SNP EcR INTRON 0.9278 3.60e-05
2L_1090401_SNP CG4629 INTRON -0.9396 3.60e-05
2R_17983519_SNP CG11073 INTRON 0.4746 3.78e-05
3L_3812775_SNP CG12006 SYNONYMOUS_CODING -0.4898 3.86e-05
2R_20258747_SNP bs INTRON 0.5115 4.07e-05
3L_3812970_SNP CG12006 SYNONYMOUS_CODING -0.6748 4.94e-05

4.2.2 Group count

grps n
INTRON 60
SYNONYMOUS_CODING 8
NON_SYNONYMOUS_CODING 7
DOWNSTREAM 5
UTR_3_PRIME 4
UPSTREAM 1

4.2.3 Gene count (>2)

gene n
prom 30
bs 12
Mur89F 6
CG3419 4
slik 3
CG12006 2
CG18519 2
EcR 2
Lgr1 2

5 DEG & GWAS correlation plots

5.1 Expression Plots

Cold vs Ctrl

Hot vs Ctrl

5.2 CTmax & DEG Corr

5.3 CTmin & DEG Corr